Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)Asym./Biol. Unit
(-)Asym./Biol. Unit - sites
collapse expand < >
Image Asym./Biol. Unit
Asym./Biol. Unit  (Jmol Viewer)
Image Asym./Biol. Unit - sites
Asym./Biol. Unit - sites  (Jmol Viewer)

(-) Description

Title :  STRUCTURE OF LEUKOTRIENE A4 HYDROLASE FROM XENOPUS LAEVIS COMPLEXED WITH INHIBITOR BESTATIN
 
Authors :  A. Stsiapanava, R. B. Kumar, J. Z. Haeggstrom, A. Rinaldo-Matthis
Date :  25 Jul 12  (Deposition) - 12 Jun 13  (Release) - 12 Feb 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.26
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Leukotriene A4 Hydrolase, Metalloprotein, Hydrolase, Protease, Zinc Binding, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. Stsiapanava, F. Tholander, R. B. Kumar, A. A. Qureshi, D. Niegowski M. Hasan, M. Thunnissen, J. Z. Haeggstrom, A. Rinaldo-Matthis
Product Formation Controlled By Substrate Dynamics In Leukotriene A4 Hydrolase.
Biochim. Biophys. Acta V. 1844 439 2014
PubMed-ID: 24333438  |  Reference-DOI: 10.1016/J.BBAPAP.2013.12.003

(-) Compounds

Molecule 1 - MGC78867 PROTEIN
    Chains: A, B
    EC Number: 3.3.2.6
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PT3
    Expression System Strain: JM101
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: LEUKOTRIENE A4 HYDROLASE
    Gene: LTA4H, MGC78867
    Organism Common: CLAWED FROG,COMMON PLATANNA,PLATANNA
    Organism Scientific: XENOPUS LAEVIS
    Organism Taxid: 8355

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1BES2Ligand/Ion2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC ACID
2ZN2Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:292 , HIS A:296 , GLU A:315 , BES A:702BINDING SITE FOR RESIDUE ZN A 701
2AC2SOFTWAREGLN A:133 , TYR A:264 , GLY A:265 , GLY A:266 , MET A:267 , GLU A:268 , HIS A:292 , GLU A:293 , HIS A:296 , GLU A:315 , PHE A:375 , TYR A:380 , ARG A:560 , ZN A:701 , HOH A:836BINDING SITE FOR RESIDUE BES A 702
3AC3SOFTWAREHIS B:292 , HIS B:296 , GLU B:315 , BES B:702BINDING SITE FOR RESIDUE ZN B 701
4AC4SOFTWAREGLN B:131 , GLN B:133 , TYR B:264 , GLY B:265 , GLY B:266 , GLU B:268 , HIS B:292 , GLU B:293 , HIS B:296 , GLU B:315 , PHE B:375 , TYR B:380 , ARG B:560 , ZN B:701BINDING SITE FOR RESIDUE BES B 702

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4GAA)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric/Biological Unit
No.Residues
1Arg A:93 -Gly A:94
2Gln A:133 -Ala A:134
3Gln B:133 -Ala B:134

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4GAA)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4GAA)

(-) Exons   (0, 0)

(no "Exon" information available for 4GAA)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:606
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              
               SCOP domains d4gaaa1 A:2-205 automated matches                                                                                                                                                                           d4gaaa2 A:206-457 automated matches                                                                                                                                                                                                                         d4gaaa3 A:458-607 automated matches                                                                                                                    SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...........eeeeeeeeeeeee....eeeeeeeeeeee......eeeeee...eeeeeee.....eeee........eeeeee.........eeeeeeeee.......eeee...........eeee.....hhhhh.........eeeeeeeeeee...eeee..eeeeeee......eeeeeeeeeeeee.hhh.eeee..eeeeee..eeeeehhhhhhhhhhhh.hhhhhhhhhhhhhh.......eeee........ee....eeee.hhhh......hhhhhhhhhhh......ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh...............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhhhhh..hhhhhh..hhhhhhh...............hhhhhhhhhhhhhh...hhhhhhhhhhhh.hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh...hhhhhhhhhhh.....hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4gaa A   2 ADPSSFASPEKFNIKHMHLKLHVDFTSRAIAASTSLTVRSLQDSLASLILDTKDLTIKKVAVNGKDATFALGTTHSFKGTPLEITLPFSLTRGQEVIVEIDSVTSPKSSALQWLNKEQTAGKIHPYLFSQCQATHCRSIIPCQDTPSVKFTYYSQVSVPKELMALMSALRDGELSEQSDSNRKIYRFKQNVPIPSYLIALVVGALEGRKVGPRTTIWTEKELLEPSVYEFAETEKMLKYAEDLAGPYVWGQYDLLILPPSFPYGGMENPCLTFVTPTVLAGDRSLASVIAHEISHSWTGNLVTNETWENFWLNEGHTVYLERRIDGRLYGEEFRQFKALGGWKELQNSVNTFGATNPLTNLVPNLHEVDVDAAFSSVPYEKGFALLFYLEQLLGGPEIFLGFLKSYIQMFAFKSVTTEEWKKFLYSYFKDKVDILDKVDWKGWMHTPGMPPVQPKYDMTLANACITLGQKWVKATESDLGSFSADDVKDLSSHQLIEVLAILLLEKPLPVSHVKRMQEVYNLNDVKNSEIRFRWLRLCIRAGWEDVIPLALAMATEQGRMKFTRPLYRDLYNFEKAREQTVNTFLKNRSFMHPVTEMLVAKDLHIS 607
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601      


Chain B from PDB  Type:PROTEIN  Length:605
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             
               SCOP domains d4gaab1 B:2-205 automated matches                                                                                                                                                                           d4gaab2 B:206-457 automated matches                                                                                                                                                                                                                         d4gaab3 B:458-606 automated matches                                                                                                                   SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...........eeeeeeeeeeeee....eeeeeeeeeeee....eeeeee.....eeeeeee.....eeee..........eeeeeeeee....eeeeeeeee.......eeee...........eeee.....hhhhh.........eeeeeeeee.....eeee..eeeeee.........eeeeeeeeeee.hhh.eeee..eeeeee..eeeeehhhhhhhhhhhh.hhhhhhhhhhhhhh.......eeee........ee....eeee.hhhh......hhhhhhhhhhh......ee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh...............hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..eehhhhhhhhhhhhh..hhhhhh..hhhhhhh...............hhhhhhhhhhhhh.hhhhhhhhhhhhh...hhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh..hhhhhhhhhhh.....hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4gaa B   2 ADPSSFASPEKFNIKHMHLKLHVDFTSRAIAASTSLTVRSLQDSLASLILDTKDLTIKKVAVNGKDATFALGTTHSFKGTPLEITLPFSLTRGQEVIVEIDSVTSPKSSALQWLNKEQTAGKIHPYLFSQCQATHCRSIIPCQDTPSVKFTYYSQVSVPKELMALMSALRDGELSEQSDSNRKIYRFKQNVPIPSYLIALVVGALEGRKVGPRTTIWTEKELLEPSVYEFAETEKMLKYAEDLAGPYVWGQYDLLILPPSFPYGGMENPCLTFVTPTVLAGDRSLASVIAHEISHSWTGNLVTNETWENFWLNEGHTVYLERRIDGRLYGEEFRQFKALGGWKELQNSVNTFGATNPLTNLVPNLHEVDVDAAFSSVPYEKGFALLFYLEQLLGGPEIFLGFLKSYIQMFAFKSVTTEEWKKFLYSYFKDKVDILDKVDWKGWMHTPGMPPVQPKYDMTLANACITLGQKWVKATESDLGSFSADDVKDLSSHQLIEVLAILLLEKPLPVSHVKRMQEVYNLNDVKNSEIRFRWLRLCIRAGWEDVIPLALAMATEQGRMKFTRPLYRDLYNFEKAREQTVNTFLKNRSFMHPVTEMLVAKDLHI 606
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501       511       521       531       541       551       561       571       581       591       601
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (3, 6)

Asymmetric/Biological Unit
(-)
Class: All alpha proteins (14657)
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4GAA)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4GAA)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)

 Visualization

(-) Interactive Views

Asymmetric/Biological Unit
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    BES  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
    ZN  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
    AC2  [ RasMol ]  +environment [ RasMol ]
    AC3  [ RasMol ]  +environment [ RasMol ]
    AC4  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
    Arg A:93 - Gly A:94   [ RasMol ]  
    Gln A:133 - Ala A:134   [ RasMol ]  
    Gln B:133 - Ala B:134   [ RasMol ]  
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
[ Asym./Biol. Unit PNG format | Asym./Biol. Unit - sites PNG format ](automatic orientation, automatically generated)
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick
[ mono PDF format | stereo PDF format ](default orientation, automatically generated)

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  4gaa
    Family and Domain Information: ProDom | SYSTERS
    General Structural Information: GlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in Membranes: OPM
    Protein Surface: SURFACE
    Secondary Structure: DSSP (structure derived) | HSSP (homology derived)
    Structural Genomics: GeneCensus
    Structural Neighbours: CE | VAST
    Structure Classification: CATH | Dali | SCOP
    Validation and Original Data: BMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  Q6IP81_XENLA | Q6IP81
    Comparative Protein Structure Models: ModBase
    Genomic Information: Ensembl
    Protein-protein Interaction: DIP
    Sequence, Family and Domain Information: InterPro | Pfam | SMART | UniProtKB/TrEMBL
 
Access by Enzyme Classificator   (EC Number)
  3.3.2.6
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
    Pathway: KEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease Information: OMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related Information: GenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain Information: XDom
    Interatomic Contacts of Structural Units: CSU
    Ligand-protein Contacts: LPC
    Protein Cavities: castP
    Sequence and Secondary Structure: PDBCartoon
    Structure Alignment: STRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence Browser: STING
 
Access by UniProt ID/Accession number
  Q6IP81_XENLA | Q6IP81
    Protein Disorder Prediction: DisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

(no "Entries Sharing at Least One Protein Chain" available for 4GAA)

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 4GAA)